GgaINT0039187 @ galGal4
Intron Retention
Gene
ENSGALG00000006237 | PKN2
Description
protein kinase N2 [Source:HGNC Symbol;Acc:HGNC:9406]
Coordinates
chr8:14130837-14131293:-
Coord C1 exon
chr8:14131148-14131293
Coord A exon
chr8:14131051-14131147
Coord C2 exon
chr8:14130837-14131050
Length
97 bp
Sequences
Splice sites
5' ss Seq
GAAGTAATT
5' ss Score
3.7
3' ss Seq
TGTTTTTGTATTTTAAAAAGGCA
3' ss Score
5.69
Exon sequences
Seq C1 exon
CAAAACCTGTGATAAGCCCTCTTGAACTCCGAATGGAAGAACTACGGCATCATTTTAGGATAGAATATGCTGTTGCAGAAGGTGCAAAGAATGTGATGAAATTACTTGGATCTGGGAAGGTTACCGACAGAAAGGCACTTTCAGAA
Seq A exon
GTAATTTATCATTACAATTTCTGAAACTTTACTTTAAATGTTCTTTCAAGGGGAAAAAAAACATCAAATATTGTATTTGTTTTTGTATTTTAAAAAG
Seq C2 exon
GCACAAGCAAGATTTAATGAATCAAGCCAGAAGTTGGACCTGTTAAAGTATTCACTGGAACAGAGATTGAATGAACTTCCTAAAAACCATCCCAAAAGTAGTATTATTATAGAGGAGCTTTCATTGGTCTCTTCACCCACATTAAGTCCTCGTCAAAGTGTAATATCTACTCAGAACCAATACAGTACACTGTCCAAACCAGCAGCTTTAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006237:ENSGALT00000010087:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.061 A=NA C2=0.111
Domain overlap (PFAM):
C1:
PF0218511=HR1=PU(53.4=79.6)
A:
NA
C2:
PF0218511=HR1=PD(43.8=44.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCTCTTGAACTCCGAATGG
R:
ACAGGTCCAACTTCTGGCTTG
Band lengths:
174-271
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]